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To stop the descent of the space colony Eurasia, X and Zero are sent by Signas to retrieve four devices in the possession of Mavericks that can improve the Enigma, increasing its chances of successfully destroying Eurasia. If the Enigma is not able to destroy Eurasia, the Hunters will use a Space Shuttle as last resort. The prologue for Mega Man X6 suggests that it failed to destroy Eurasia.

Trivia

The Crystal Ball was mistranslated as "Orifalcon" in the English instruction manual, and misspelled "Cristal Ball" in the game.

The RNG roll for the Enigma (or the shuttle)'s success chance seems to be when the Results Screen is called up after a boss battle. ie: If emulating, a save state before the final shot in the preceding fight will be far enough back for a re-roll.